evoTS1.0.3 package

Analyses of Evolutionary Time-Series

as.evoTS.multi.BW.acceldecel.fit

Class for fit to evolutionary sequence (time-series) models

as.evoTS.multi.BW.fit

Class for fit to evolutionary sequence (time-series) models

loglik.surface.accel

Calculate the log-likelihood surface for a part of parameter space

loglik.surface.decel

Calculate the log-likelihood surface for a part of parameter space

opt.joint.URW.Stasis

Optimization and log-likelihoods for pairs of models.

fit.multivariate.URW

Fit multivariate Unbiased Random Walk models to multivariate evolution...

fit.multivariate.URW.shift

Fit separate multivariate Unbiased Random Walk models to two different...

logL.joint.accel.decel.single.R

Log-likelihoods for evolutionary models

logL.joint.accel.decel.single.R.zero.corr

Log-likelihoods for evolutionary models

logL.joint.accel_decel

Log-likelihoods for evolutionary models

logL.joint.multi.OUOU

Log-likelihoods for evolutionary models

logL.joint.URW.URW

Log-likelihoods for evolutionary models

as.evoTS.multi.OU.fit

Class for fit to evolutionary sequence (time-series) models

as.evoTS.multi.URW.fit

Class for fit to evolutionary sequence (time-series) models

as.evoTS.multi.URW.shift.fit

Class for fit to evolutionary sequence (time-series) models

as.evoTSfit.OUBM

Class for fit to evolutionary sequence (time-series) models

fit.all.univariate

Fit all univariate models to an evolutionary sequence (time-series).

fit.mode.shift

Fit two models to two separate segments to an evolutionary sequence (t...

fit.multivariate.OU

Fit predefined multivariate Ornstein-Uhlenbeck models to multivariate ...

fit.multivariate.OU.user.defined

Fit user-defined multivariate Ornstein-Uhlenbeck models to multivariat...

logL.joint.multi.OUOU.user

Log-likelihoods for evolutionary models

logL.joint.multi.R

Log-likelihoods for evolutionary models

logL.joint.OU.BM

Log-likelihoods for evolutionary models

logL.joint.single.R

Log-likelihoods for evolutionary models

logL.joint.single.R.zero.corr

Log-likelihoods for evolutionary models

logL.joint.Stasis.OU

Log-likelihoods for evolutionary models

loglik.surface.GRW

Calculate the log-likelihood surface for a part of parameter space

loglik.surface.OU

Calculate the log-likelihood surface for a part of parameter space

loglik.surface.OUBM

Calculate the log-likelihood surface for a part of parameter space

loglik.surface.stasis

Calculate the log-likelihood surface for a part of parameter space

opt.joint.OUBM

Fit an Ornstein-Uhlenbeck model with an optimum that evolves according...

loglik.surface.URW

Calculate the log-likelihood surface for a part of parameter space

make.multivar.evoTS

Makes a multivariate data set of

opt.accel.single.R

Fit multivariate Unbiased Random Walk with increasing (exponential acc...

opt.accel.single.R.zero.corr

Fit multivariate Unbiased Random Walk model with uncorrelated trait ch...

opt.decel.single.R

Fit multivariate Unbiased Random Walk with decreasing (exponential dec...

opt.decel.single.R.zero.corr

Fit multivariate Unbiased Random Walk model with uncorrelated trait ch...

opt.joint.accel

Fit an Unbiased Random Walk with an accelerating rate of change throug...

opt.joint.decel

Fit an Unbiased Random Walk with an decelerating rate of change throug...

opt.single.R

Fit multivariate Unbiased Random Walk model.

opt.single.R.zero.corr

Fit multivariate Unbiased Random Walk model with uncorrelated trait ch...

plotevoTS.multivariate

Plots multivariate evolutionary sequence (time-series) data set

plotevoTS

Plot a paleoTS object

sim.accel.decel

Simulate an Unbiased Random Walk with an accelerating or decelerating ...

sim.multi.OU

Simulate multivariate Ornstein-Uhlenbeck evolutionary sequence data se...

sim.multi.URW

Simulate multivariate evolutionary sequence data that evolve according...

sim.OUBM

Simulate an Ornstein-Uhlenbeck process with optimum changing according...

Facilitates univariate and multivariate analysis of evolutionary sequences of phenotypic change. The package extends the modeling framework available in the 'paleoTS' package. Please see <https://klvoje.github.io/evoTS/index.html> for information about the package and the implemented models.

  • Maintainer: Kjetil Lysne Voje
  • License: GPL (>= 2)
  • Last published: 2024-06-20